RetrogeneDB ID: retro_tbel_4258

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_73474:4103..4565(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: EAPP
• Ensembl ID: ENSTBEG00000001306
• Aliases: None
• Description: E2F-associated phosphoprotein [Source:HGNC Symbol;Acc:19312]

Sequence

>retro_tbel_4258
ATGAGCAGGCTCCAGGATGACTACGACCCCTACGCGGTTGAAGAGCCTAGTGACGAGGAGCTGGCCTGGAGCAGCTCTGA
AGATGAAGTGGAGGTGCTTTTACATGGAACTCCTGACCAGAAACGAAAACTCACCAGAGAGTGTCTTACTGGAGAAAGCG
AATCATCTAGTGAAGATGAATTTGAAAAAGAAATGGAAGCGGAGTTGAATTCCACTATAACAACAATGGAGGACAAGCTA
TCCTCTCTGGGCACAGGATCTTCCTCAGGAAATGGGGAAGTCGGAACAGCTCCAACGAAGTACTATGATAGATATTCTGG
TTCTGATTCTGAGGATGAAGAAAAAGCCGCACAGGCAGACGAGAAAAAAGAGAAGAAACGACACAGGATTCCAACAAACG
ATGAATTACTCTATGATCCTGGGTCGATCCACAGAGAAGAGGTTATGGTTTGGGGCTCCAGA

Alignment

ORF - retro_tbel_4258 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.52 %
• Parental protein coverage: 80.31 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MNRLQDDYDPYAVEEPSDEEPALSSSEDEVDVLLHGTPDQKRKLIRECLTGESESSSEDEFEKEMEAELN
          M.RLQDDYDPYAVEEPSDEE.A.SSSEDEV.VLLHGTPDQKRKL.RECLTGESESSSEDEFEKEMEAELN
Retrocopy MSRLQDDYDPYAVEEPSDEELAWSSSEDEVEVLLHGTPDQKRKLTRECLTGESESSSEDEFEKEMEAELN

Parental  STIKTMEDKLSSLGTGSSSGNGKVGTAPTKYYDDIYFDSDSEDEEKAAQADKKKKKKRHRIPTNDELLYD
          STI.TMEDKLSSLGTGSSSGNG.VGTAPTKYYD..Y..SDSEDEEKAAQAD.KK.KKRHRIPTNDELLYD
Retrocopy STITTMEDKLSSLGTGSSSGNGEVGTAPTKYYDR-YSGSDSEDEEKAAQADEKKEKKRHRIPTNDELLYD

Parental  PEKDNRDQAWVDAQR
          P....R....V...R
Retrocopy PGSIHREEVMVWGSR

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tupaia belangeri was not studied using RNA-Seq expression data.

ChIP-Seq

Tupaia belangeri was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_tbel_4258 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_4258 was not experimentally validated.

Homology

Retrocopy orthology:

Tupaia belangeri does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

---

Parental genes homology:

Parental genes homology involve 8 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000005391	1 retrocopy	retro_cjac_3231,
Cavia porcellus	ENSCPOG00000003005	1 retrocopy	retro_cpor_898,
Myotis lucifugus	ENSMLUG00000013814	1 retrocopy	retro_mluc_596,
Monodelphis domestica	ENSMODG00000014525	1 retrocopy	retro_mdom_1226,
Mustela putorius furo	ENSMPUG00000001029	1 retrocopy	retro_mputfur_19,
Oryctolagus cuniculus	ENSOCUG00000003226	1 retrocopy	retro_ocun_1701,
Ictidomys tridecemlineatus	ENSSTOG00000005273	2 retrocopies	retro_itri_1598, retro_itri_237,
Tupaia belangeri	ENSTBEG00000001306	1 retrocopy	retro_tbel_4258 ,